Bug Fixes:

• Notes data may be lost when saving the file
• SBW connection: CellDesigner annotation data is not passed to SBW modules
• Database link to Genome Network Platform is not working
• Incorrect error messages for simulation
• Cannot set stoichiometry value other than 1

Known problems

• Copasi GUI: focus out from Copasi panel when the mouse pointer moves out
• SBW connection: Some SBW modules may not work correctly

Major New Features for Ver.4.0:

• Enhanced Graphical Notation
  CellDesigner's Graphical Notation conforms to SBGN (Systems Biology Graphical Notation) proposal (as of April 2008 draft). (* not complete SBGN Process Diagram Level1 which became available in August 2008).
• Enhanced KineticLaw Edit Dialog: MathML rendering in KineticLaw.
• Simulation / Control Panel enhancement
  
• Export Species/Reactions information including Notes into CSV file
• Validation of files when opening (libSBML3)
• Native file chooser support for Mac OS X
• Enhanced Edit Functions
• [Layout] menu: Automatic Layout function (using yFiles layout library.)
• Layer Function (alpha version) to add comments / arrows on top of the models.
• Database link to Genome Network Platform
  
• Plugin development framework.
  Develop your plugin on Eclipse, and you can call the plugin from [Plugin] menu.
  > Plug-In Tutorial [pdf] > http://celldesigner.org/plugins.html
  
  
• Export of Pure Level 1 Version 1 is no longer supported.
• Windows 2000 is no longer supported.

For details, see Features 4.0

Installation:

New Installer is being adopted. For details on installation procedure, check here.